PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Pavir.9KG649500.2.p
Organism
Panicum virgatum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Panicinae; Panicum
Family MIKC_MADS
Protein Properties Length: 232aa    MW: 26000.4 Da    PI: 8.7026
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.9KG649500.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF76.91.6e-241261251
                         ---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
               SRF-TF  2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                         ri+n   rqvtfskR  g++KKAeELS+LCdaev +++fs tgkl+ ++s
  Pavir.9KG649500.2.p 12 RIDNLAARQVTFSKRHRGLFKKAEELSILCDAEVGLVVFSATGKLFHFAS 61
                         89********************************************9986 PP
2K-box46.41.7e-16901731598
                K-box  15 eslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkl 98 
                             +   a+L++e+++   ++R++ Ge+L++Ls+++Lq+Le+ Le++l ++ ++K++ +l++i+ l +k  +l een +L++++
  Pavir.9KG649500.2.p  90 HVDDSTCARLREELSEASLKLRQMRGEELQRLSVQQLQELEKTLESGLGSVLKTKSQKILDEINSLERKRMQLIEENSRLKEQV 173
                          44566789*************************************************************************997 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006626.296363IPR002100Transcription factor, MADS-box
SMARTSM004328.8E-32362IPR002100Transcription factor, MADS-box
SuperFamilySSF554559.68E-29589IPR002100Transcription factor, MADS-box
CDDcd002655.79E-36576No hitNo description
PRINTSPR004048.9E-24525IPR002100Transcription factor, MADS-box
PfamPF003191.1E-231259IPR002100Transcription factor, MADS-box
PRINTSPR004048.9E-242540IPR002100Transcription factor, MADS-box
PRINTSPR004048.9E-244061IPR002100Transcription factor, MADS-box
PROSITE profilePS5129712.21689179IPR002487Transcription factor, K-box
PfamPF014865.1E-1594173IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 232 aa     Download sequence    Send to blast
MAGKRERIAI RRIDNLAARQ VTFSKRHRGL FKKAEELSIL CDAEVGLVVF SATGKLFHFA  60
SSSMNRIIDR YDSHSKTLQK SEAPSQLQSH VDDSTCARLR EELSEASLKL RQMRGEELQR  120
LSVQQLQELE KTLESGLGSV LKTKSQKILD EINSLERKRM QLIEENSRLK EQVTRMARME  180
TQLGADSEVV YEEGQSSESV TNASYPRPPA DTNDGGSDTS LRLGLPLFSS K*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A2e-18575373MEF2C
5f28_B2e-18575373MEF2C
5f28_C2e-18575373MEF2C
5f28_D2e-18575373MEF2C
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.102820.0leaf| root| stem
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in roots, shoots and developing panicles. {ECO:0000269|PubMed:15682279}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.9KG649500.2.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0360480.0BT036048.1 Zea mays full-length cDNA clone ZM_BFb0093D17 mRNA, complete cds.
GenBankBT0873240.0BT087324.1 Zea mays full-length cDNA clone ZM_BFb0039N23 mRNA, complete cds.
GenBankBT0878520.0BT087852.1 Zea mays full-length cDNA clone ZM_BFb0227O08 mRNA, complete cds.
GenBankEU9561480.0EU956148.1 Zea mays clone 1558111 MADS-box transcription factor 47 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025793844.11e-158MADS-box transcription factor 47-like isoform X2
SwissprotQ5K4R01e-123MAD47_ORYSJ; MADS-box transcription factor 47
TrEMBLA0A3L6SC431e-157A0A3L6SC43_PANMI; Uncharacterized protein
STRINGPavir.Ib00555.1.p1e-165(Panicum virgatum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G22540.12e-79MIKC_MADS family protein
Publications ? help Back to Top
  1. Lee S,Choi SC,An G
    Rice SVP-group MADS-box proteins, OsMADS22 and OsMADS55, are negative regulators of brassinosteroid responses.
    Plant J., 2008. 54(1): p. 93-105
    [PMID:18182025]
  2. Lee S,Jeong DH,An G
    A possible working mechanism for rice SVP-group MADS-box proteins as negative regulators of brassinosteroid responses.
    Plant Signal Behav, 2008. 3(7): p. 471-4
    [PMID:19704489]